Assembly
ASM34088v1
BioProject PRJNA60605 · BioSample SAMN02603265
GENOME-RESOLVED EVIDENCE
GCA_000340885.1
Clostridium saccharoperbutylacetonicum · Complete Genome
View versioned NCBI assembly →
Quality metadata
Genome size 6666445 bp · GC 29.500%
Completeness 99.380% · contamination 2.800%
Pathway marker completeness
| Module | Markers | Fraction | Call |
|---|---|---|---|
| bcd_etf_module | 1/3 | 0.333 | Partial/absent |
| ethanol_entry_support | 1/1 | 1.000 | Complete marker set |
| fatty_acid_biosynthesis_core | 0/8 | 0.000 | Partial/absent |
| lactate_entry_support | 2/2 | 1.000 | Complete marker set |
| reverse_beta_oxidation_core | 2/4 | 0.500 | Partial/absent |
| rnf_complex | 4/6 | 0.667 | Partial/absent |
Detected markers
| Marker | Function | Copies |
|---|---|---|
| etfA | electron transfer flavoprotein alpha subunit | 1 |
| rnfA | Rnf complex subunit A | 1 |
| rnfC | Rnf complex subunit C | 1 |
| rnfD | Rnf complex subunit D | 1 |
| rnfE | Rnf complex subunit E | 1 |
| adhE | bifunctional acetaldehyde-CoA/alcohol dehydrogenase | 2 |
| lctP | L-lactate permease | 2 |
| ldh | L-lactate dehydrogenase | 4 |
| hbd | 3-hydroxybutyryl-CoA dehydrogenase | 3 |
| thl | acetyl-CoA acetyltransferase/thiolase | 6 |
Profile-HMM marker predictions
Approved candidates and review records are genomic predictions, not evidence of expression or MCFA production. Excluded matches remain visible for audit.
| Marker / protein | Confidence | Review status | Score / coverage | Supporting evidence |
|---|---|---|---|---|
| No profile-HMM predictions for this assembly. | ||||
Protein-level evidence
| Gene | Protein | Orthogroup | Coordinates | Annotation |
|---|---|---|---|---|
| rnfCCspa_c06810 | AGF54466.1 | OG0000037 | CP004121.1:746699–748018 + | electron transport complex protein RnfC [Clostridium saccharoperbutylacetonicum N1-4(HMT)] |
| etfA4Cspa_c20920 | AGF55858.1 | OG0000082 | CP004121.1:2304441–2305448 + | electron transfer flavoprotein alpha subunit EtfA [Clostridium saccharoperbutylacetonicum N1-4(HMT)] |
| ldh1Cspa_c10970 | AGF54873.1 | OG0000131 | CP004121.1:1219278–1220231 + | L-lactate dehydrogenase 1 [Clostridium saccharoperbutylacetonicum N1-4(HMT)] |
| ldh2Cspa_c35710 | AGF57332.1 | OG0000131 | CP004121.1:3860055–3861002 - | L-lactate dehydrogenase 3 [Clostridium saccharoperbutylacetonicum N1-4(HMT)] |
| ldh3Cspa_c55730 | AGF59308.1 | OG0000131 | CP004121.1:6231255–6232202 - | L-lactate dehydrogenase 3 [Clostridium saccharoperbutylacetonicum N1-4(HMT)] |
| hbd1Cspa_c04370 | AGF54255.1 | OG0000229 | CP004121.1:505555–506403 + | 3-hydroxybutyryl-CoA dehydrogenase Hbd [Clostridium saccharoperbutylacetonicum N1-4(HMT)] |
| hbd2Cspa_c20880 | AGF55854.1 | OG0000229 | CP004121.1:2300064–2300909 + | 3-hydroxybutyryl-CoA dehydrogenase Hbd [Clostridium saccharoperbutylacetonicum N1-4(HMT)] |
| hbd3Cspa_c22690 | AGF56034.1 | OG0000229 | CP004121.1:2500403–2501341 + | 3-hydroxybutyryl-CoA dehydrogenase Hbd [Clostridium saccharoperbutylacetonicum N1-4(HMT)] |
| thlA1Cspa_c06180 | AGF54410.1 | OG0000234 | CP004121.1:684728–685909 + | acetyl-CoA acetyltransferase ThlA [Clostridium saccharoperbutylacetonicum N1-4(HMT)] |
| thlA2Cspa_c17310 | AGF55501.1 | OG0000234 | CP004121.1:1905661–1906839 + | acetyl-CoA acetyltransferase ThlA [Clostridium saccharoperbutylacetonicum N1-4(HMT)] |
| thlCspa_c20480 | AGF55814.1 | OG0000234 | CP004121.1:2261659–2261901 + | acetyl-CoA acetyltransferase [Clostridium saccharoperbutylacetonicum N1-4(HMT)] |
| thlA3Cspa_c20520 | AGF55818.1 | OG0000234 | CP004121.1:2265175–2266353 + | acetyl-CoA acetyltransferase ThlA [Clostridium saccharoperbutylacetonicum N1-4(HMT)] |
| thlA4Cspa_c20890 | AGF55855.1 | OG0000234 | CP004121.1:2301013–2302197 + | acetyl-CoA acetyltransferase ThlA [Clostridium saccharoperbutylacetonicum N1-4(HMT)] |
| thlCspa_c50320 | AGF58785.1 | OG0000234 | CP004121.1:5555998–5557134 - | acetyl-CoA acetyltransferase [Clostridium saccharoperbutylacetonicum N1-4(HMT)] |
| adhE2Cspa_c37180 | AGF57478.1 | OG0001124 | CP004121.1:4020656–4023244 - | aldehyde-alcohol dehydrogenase AdhE [Clostridium saccharoperbutylacetonicum N1-4(HMT)] |
| lctP1Cspa_c03480 | AGF54166.1 | OG0001228 | CP004121.1:367782–369299 + | L-lactate permease LctP [Clostridium saccharoperbutylacetonicum N1-4(HMT)] |
| lctP2Cspa_c41440 | AGF57897.1 | OG0001228 | CP004121.1:4485508–4487043 - | L-lactate permease LctP [Clostridium saccharoperbutylacetonicum N1-4(HMT)] |
| rnfECspa_c06840 | AGF54469.1 | OG0001320 | CP004121.1:749645–750268 + | electron transport complex protein RnfE [Clostridium saccharoperbutylacetonicum N1-4(HMT)] |
| rnfACspa_c06850 | AGF54470.1 | OG0001328 | CP004121.1:750268–750843 + | electron transport complex protein RnfA [Clostridium saccharoperbutylacetonicum N1-4(HMT)] |
| rnfDCspa_c06820 | AGF54467.1 | OG0001342 | CP004121.1:748035–749072 + | electron transport complex protein RnfD [Clostridium saccharoperbutylacetonicum N1-4(HMT)] |
| lldDCspa_c20440 | AGF55810.1 | OG0001572 | CP004121.1:2259067–2260089 + | L-lactate dehydrogenase [Clostridium saccharoperbutylacetonicum N1-4(HMT)] |
| adhE1Cspa_c21490 | AGF55915.1 | OG0023907 | CP004121.1:2368701–2369471 + | aldehyde-alcohol dehydrogenase AdhE [Clostridium saccharoperbutylacetonicum N1-4(HMT)] |
These are genomic annotation predictions. Experimental activity, expression and metabolite production require separate evidence.